The iterative phase retrieval based on phase diversity technologies can solve the stagnation problem of Gerchberg-Saxton algorithm which performs Fourier transform to iterate back and forth between the object and spectral planes with known constraints. However, the application of phase diversity technologies in iterative phase retrieval methods will bring in multiple physical parameters such as distances or wavelengths. The measured accuracy of these physical parameters will ultimately affect the accuracy of the iterative phase retrieval methods. In this paper, a physical parameters estimation method which has the advantages of high global convergence and local convergence is proposed to improve the accuracy of iterative phase retrieval methods. Meanwhile, this method is introduced in the single-beam multiple-intensity reconstruction (SBMIR), termed PE-SBMIR, and its performance is verified by simulations and experiments. By simulating multiple sets of distance parameters with errors, the retrieved accuracy using PE-SBMIR can be improved by 2-4 orders of magnitude compared with SBMIR. Experimental results show that whether it is an amplitude-type object or phase-type object, the accuracy using PE-SBMIR is significantly higher than using SBMIR. The physical parameters estimation method proposed in this paper may be adopted in other iterative phase retrieval methods using phase diversity technologies.